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Makefile using system tabix and bgzip #372

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JPWerling opened this issue Nov 15, 2024 · 0 comments
Open

Makefile using system tabix and bgzip #372

JPWerling opened this issue Nov 15, 2024 · 0 comments
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@JPWerling
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jasen/Makefile

Line 803 in 999b2bd

&& bgzip $$(basename $<) |& tee -a $(INSTALL_LOG)

jasen/Makefile

Line 810 in 999b2bd

&& tabix -p bed $$(basename $<) |& tee -a $(INSTALL_LOG)

The Makefile for use with make install as directed by the documentation is assuming both bgzip and tabix are available on the system level.
Attempted fix by using the previously built samtools container but it does not seem to include the htslib package.

Temporarily fixed by creating container using htslib from dockerhub and using it in Makefile.

@JPWerling JPWerling added the bug Something isn't working label Nov 15, 2024
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